Genome-scale metabolic networks.

TitleGenome-scale metabolic networks.
Publication TypeJournal Article
Year of Publication2009
AuthorsTerzer M, Maynard ND, Covert MW, Stelling J
JournalWiley Interdiscip Rev Syst Biol Med
Volume1
Issue3
Pagination285-97
Date Published2009 Nov-Dec
ISSN1939-005X
KeywordsGenome, Genome, Bacterial, Genome, Fungal, Metabolic Networks and Pathways, Models, Biological, Reproducibility of Results, Systems Biology
Abstract

During the last decade, models have been developed to characterize cellular metabolism at the level of an entire metabolic network. The main concept that underlies whole-network metabolic modeling is the identification and mathematical definition of constraints. Here, we review large-scale metabolic network modeling, in particular, stoichiometric- and constraint-based approaches. Although many such models have been reconstructed, few networks have been extensively validated and tested experimentally, and we focus on these. We describe how metabolic networks can be represented using stoichiometric matrices and well-defined constraints on metabolic fluxes. We then discuss relatively successful approaches, including flux balance analysis (FBA), pathway analysis, and common extensions or modifications to these approaches. Finally, we describe techniques for integrating these approaches with models of other biological processes.

DOI10.1002/wsbm.37
PubMed URLhttp://www.ncbi.nlm.nih.gov/pubmed/20835998?dopt=Abstract
Alternate TitleWiley Interdiscip Rev Syst Biol Med
PubMed ID20835998